introns

Data license: ODbL · Data source: Larue & Roy, 2023 · About: Minor Intron Database (WtMTA)

id
INTEGER (primary key), globally unique identifier for each intron
dinucleotide_pair
TEXT, terminal dinucleotide sequences of the intron
is_minor
INTEGER, indicates if the intron is a minor intron (1) or not (0)
score
REAL, score representing the probability (0-100%) of the intron being minor
length
INTEGER, length of the intron in base pairs
transcript_id
INTEGER (foreign key referencing transcripts(id)), parent transcript
ordinal_index
INTEGER, ordinal position of the intron within the transcript (e.g., 3 for the third intron)
start
INTEGER, start position of the intron in the genome
end
INTEGER, end position of the intron in the genome
taxonomy_id
INTEGER (foreign key referencing genomes(taxonomy_id)), NCBI taxonomy identifier for species
scored_motifs
TEXT, motifs scored for the intron
phase
INTEGER, phase of the intron in coding sequence (0, 1, or 2 or null for introns outside of coding sequence)
in_cds
INTEGER, indicates if the intron is within the coding sequence (1) or not (0; e.g., UTR introns)
relative_position
REAL, relative position of the intron within the transcript (as a percentage of coding length)

7 rows where transcript_id = 13210825

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id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
70382108 GT-AG 0 1.000000099473604e-05 74153 rna-XM_027886010.1 13210825 1 3400053 3474205 Empidonax traillii 164674 TGG|GTGAGTGCGG...TCGCTCCTGACA/TCGCTCCTGACA...TGCAG|ATC 0 1 4.221
70382109 GT-AG 0 1.000000099473604e-05 2230 rna-XM_027886010.1 13210825 2 3397634 3399863 Empidonax traillii 164674 CTG|GTGAGCATGC...CTTCTCTTGCCT/CATGCTCTGACT...TTCAG|TAT 0 1 14.07
70382110 GT-AG 0 1.000000099473604e-05 1500 rna-XM_027886010.1 13210825 3 3396059 3397558 Empidonax traillii 164674 GAG|GTAGGTGGAA...TTTTTTTTGTTT/CAGTTGCTCATG...CCTAG|ATC 0 1 17.978
70382111 GT-AG 0 0.0001396562780018 838 rna-XM_027886010.1 13210825 4 3395125 3395962 Empidonax traillii 164674 AGT|GTAAGTCTGA...TGCCTCTTATTC/TGTGTTTTAAAT...CTTAG|CTG 0 1 22.981
70382112 GT-AG 0 2.345741289678392e-05 4379 rna-XM_027886010.1 13210825 5 3390590 3394968 Empidonax traillii 164674 AAG|GTACCAGTAA...GCATTCGTGGCA/GGAATGATGATG...TCCAG|GGC 0 1 31.11
70382113 GT-AG 0 1.000000099473604e-05 7079 rna-XM_027886010.1 13210825 6 3383427 3390505 Empidonax traillii 164674 CAG|GTAAGTGCAT...TTTAACTTAAAT/TACAATTTAACT...CACAG|TTG 0 1 35.487
70382170 GT-AG 0 1.000000099473604e-05 675 rna-XM_027886010.1 13210825 7 3382679 3383353 Empidonax traillii 164674 AAG|GTGAGCTTTC...TTTTTGTTAGCA/TTCTTTCTCATC...TCTAG|TCT   0 39.291

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CREATE TABLE "introns" (
"id" INTEGER,
  "dinucleotide_pair" TEXT,
  "is_minor" INTEGER,
  "score" REAL,
  "length" INTEGER,
  "transcript_id" INTEGER,
  "ordinal_index" INTEGER,
  "start" INTEGER,
  "end" INTEGER,
  "taxonomy_id" INTEGER,
  "scored_motifs" TEXT,
  "phase" INTEGER,
  "in_cds" INTEGER,
  "relative_position" REAL
  ,PRIMARY KEY ([id]),
   FOREIGN KEY([transcript_id]) REFERENCES [transcripts]([id]),
   FOREIGN KEY([taxonomy_id]) REFERENCES [genomes]([taxonomy_id])
);
CREATE INDEX [idx_introns_transcript_id]
    ON [introns] ([transcript_id]);
CREATE INDEX [idx_introns_taxonomy_id]
    ON [introns] ([taxonomy_id]);
CREATE INDEX [idx_introns_phase]
    ON [introns] ([phase]);
CREATE INDEX [idx_introns_is_minor]
    ON [introns] ([is_minor]);
CREATE INDEX [idx_introns_dinucleotide_pair]
    ON [introns] ([dinucleotide_pair]);
CREATE INDEX [idx_introns_score]
    ON [introns] ([score]);
CREATE INDEX [idx_introns_in_cds]
    ON [introns] ([in_cds]);